Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 129 of 328
Found at i:37285222 original size:24 final size:24
Alignment explanation
Indices: 37285165--37285331 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
37285155 GGAGGAAGTG
*
37285165 CAAAAGGGCTTATGCCCCAGTTGT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
37285189 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
37285212 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
37285236 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
37285260 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
37285284 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* * *
37285308 TAAAAGAGGC-TAGGCCTCAGTTAT
1 CAAAAG-GGCTTATGCCCCAGTTAT
37285332 ATGATAAAGC
Statistics
Matches: 133, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
23 21 0.16
24 109 0.82
25 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:37293036 original size:31 final size:31
Alignment explanation
Indices: 37292998--37293067 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
37292988 ATAGTGTGGA
37292998 TGACTTCGACTTCAACGATCCCAAATCCGAT
1 TGACTTCGACTTCAACGATCCCAAATCCGAT
37293029 TGACTTCGACTTCAACGATCCCAAATCCGAT
1 TGACTTCGACTTCAACGATCCCAAATCCGAT
37293060 TG-CTTCGA
1 TGACTTCGA
37293068 GCGAAATCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
30 6 0.15
31 33 0.85
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.27
Consensus pattern (31 bp):
TGACTTCGACTTCAACGATCCCAAATCCGAT
Found at i:37293461 original size:40 final size:40
Alignment explanation
Indices: 37293416--37293582 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
37293406 CGGAATATAA
*
37293416 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAAC
* * * *
37293456 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
** *
37293496 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
** * * * * *
37293536 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
37293575 CCGGATAT
1 CCGGATAT
37293583 TATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:37296438 original size:20 final size:20
Alignment explanation
Indices: 37296413--37296463 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
37296403 ATTTTGATAA
*
37296413 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
37296433 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
*
37296453 ACATGAGATGT
1 ACATGACATGT
37296464 TCATAAATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:37296565 original size:24 final size:24
Alignment explanation
Indices: 37296508--37296698 Score: 280
Period size: 24 Copynumber: 8.0 Consensus size: 24
37296498 GGAGGAAGTG
37296508 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
37296532 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
37296555 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
37296579 CAAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
37296603 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
37296627 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
37296650 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
37296674 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
37296699 ATGATAAAGC
Statistics
Matches: 154, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
23 44 0.29
24 99 0.64
25 11 0.07
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:37296577 original size:47 final size:47
Alignment explanation
Indices: 37296508--37296677 Score: 295
Period size: 47 Copynumber: 3.6 Consensus size: 47
37296498 GGAGGAAGTG
37296508 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
37296555 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
37296603 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
37296650 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
37296678 AGAGGCTAGG
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
47 71 0.61
48 45 0.39
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:37296671 original size:95 final size:96
Alignment explanation
Indices: 37296508--37296684 Score: 320
Period size: 95 Copynumber: 1.9 Consensus size: 96
37296498 GGAGGAAGTG
37296508 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
37296573 AGTTATCAAAAG-GGCTTATGCCCTAGTTAT
66 AGTTATCAAAAGAGGCTTATGCCCTAGTTAT
* *
37296603 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
*
37296668 AGTTATTAAAAGAGGCT
66 AGTTATCAAAAGAGGCT
37296685 AGGCCTCCAG
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
95 74 0.95
96 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (96 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTATCAAAAGAGGCTTATGCCCTAGTTAT
Found at i:37309014 original size:46 final size:47
Alignment explanation
Indices: 37308952--37309081 Score: 126
Period size: 43 Copynumber: 2.9 Consensus size: 47
37308942 ATAGGGAGAC
* * *
37308952 CAAAATTTGAATCTGCTCCGCTCCTGCTTAGCGAAGATAAGATTCAT
1 CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAGATTCAT
* *
37308999 CAAAATTCG-ATCTGCTTCACTCCTGCTCAGTGAAGATAAGA-TC-T
1 CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAGATTCAT
** * ** *
37309043 -AGTATT-TAGCCTGCTCCACTCCTGCTCAGTGAAGATAAG
1 CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAG
37309082 GCTGATGATT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
43 32 0.45
44 1 0.01
45 2 0.03
46 28 0.39
47 8 0.11
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (47 bp):
CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAGATTCAT
Found at i:37309071 original size:43 final size:43
Alignment explanation
Indices: 37309009--37309481 Score: 179
Period size: 43 Copynumber: 10.8 Consensus size: 43
37308999 CAAAATTCGA
*
37309009 TCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAG
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAG
* * * *
37309052 CCTGCTCCACTCCTGCTCAGTGAAGATAAG-GCT-GATGATTGGAA
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAG-T-ATT-TAG
* * * * * **
37309096 TCTGCTTCA-TCGCCGGT-ACGTGGAGATAAAATTCATCAAAATTT-G
1 TCTGCTCCACTC-CTGCTCA-GTGAAGATAAGA-TC-T-AGTATTTAG
* * *
37309141 ATCTACTCCACTCCTG-TCAGTGAAGATAAGATCTGGTGTTTAG
1 -TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAG
* * * * ** *
37309184 CCTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGGTGGCTGAAA
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGT--ATTTAG
* * * *
37309228 TCTGCTCCATTGCC-GGTACA-TGGAGATAAGA-CTTGTCAAAATTT-G
1 TCTGCTCCACT-CCTGCT-CAGTGAAGATAAGATCTAGT----ATTTAG
* * * *
37309273 ATCTGCTTCACTCCTG-TCAGTGAAGGTAAGATCTAGTCTATAG
1 -TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAG
* * * * *
37309316 CCTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGGTGATTGGAA
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGT-ATT-TAG
* * * * * **
37309360 TCTACTCCA-TCGCCGGT-ACCTGGAGATAAGATTCATCAAAATTT-G
1 TCTGCTCCACTC-CTGCTCA-GTGAAGATAAGA-TC-T-AGTATTTAG
* * *
37309405 ATCTGCTCCACTCCTG-TCAGCGAAGATAAGATCTGGTGTTTAG
1 -TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAG
*
37309448 CCTGCTCCACTCCTGCTCAGTGAAGATAAGATCT
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCT
37309482 GATGATATCT
Statistics
Matches: 307, Mismatches: 82, Indels: 82
0.65 0.17 0.17
Matches are distributed among these distances:
41 1 0.00
42 60 0.20
43 87 0.28
44 72 0.23
45 37 0.12
46 38 0.12
47 12 0.04
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (43 bp):
TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAG
Found at i:37309201 original size:132 final size:132
Alignment explanation
Indices: 37308986--37309487 Score: 736
Period size: 132 Copynumber: 3.8 Consensus size: 132
37308976 TGCTTAGCGA
* * * *
37308986 AGATAAGATTCATCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTA
1 AGATAAAATTCATCAAAATTTGATCTGCTCCACTCCTG-TCAGTGAAGATAAGATCTAGTGTTTA
* *
37309051 GCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTTCATCGCCGGTACG
65 GCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACA
37309116 TGG
130 TGG
* *
37309119 AGATAAAATTCATCAAAATTTGATCTACTCCACTCCTGTCAGTGAAGATAAGATCTGGTGTTTAG
1 AGATAAAATTCATCAAAATTTGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTAGTGTTTAG
* ** * *
37309184 CCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGGTACAT
66 CCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACAT
37309249 GG
131 GG
* * * * * *
37309251 AGATAAGACTT-GTCAAAATTTGATCTGCTTCACTCCTGTCAGTGAAGGTAAGATCTAGTCTATA
1 AGATAA-AATTCATCAAAATTTGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTAGTGTTTA
* * *
37309315 GCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGATTGGAATCTACTCCATCGCCGGTACC
65 GCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACA
37309380 TGG
130 TGG
* * *
37309383 AGATAAGATTCATCAAAATTTGATCTGCTCCACTCCTGTCAGCGAAGATAAGATCTGGTGTTTAG
1 AGATAAAATTCATCAAAATTTGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTAGTGTTTAG
*
37309448 CCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGATGAT
66 CCTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGATGAT
37309488 ATCTGTAATC
Statistics
Matches: 328, Mismatches: 38, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
131 2 0.01
132 282 0.86
133 44 0.13
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (132 bp):
AGATAAAATTCATCAAAATTTGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTAGTGTTTAG
CCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACAT
GG
Found at i:37309432 original size:264 final size:265
Alignment explanation
Indices: 37308998--37309477 Score: 854
Period size: 264 Copynumber: 1.8 Consensus size: 265
37308988 ATAAGATTCA
*
37308998 TCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACT
1 TCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATATAGCCTGCTCCACT
* * *
37309063 CCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTTCATCGCCGGTACGTGGAGATAAAAT
66 CCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTACTCCATCGCCGGTACCTGGAGATAAAAT
*
37309128 TCATCAAAATTTGATCTACTCCACTCCTGTCAGTGAAGATAAGATCTGGTGTTTAGCCTGCTCCA
131 TCATCAAAATTTGATCTACTCCACTCCTGTCAGCGAAGATAAGATCTGGTGTTTAGCCTGCTCCA
37309193 CTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGGTACATGGAGATAAG
196 CTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGGTACATGGAGATAAG
37309258 ACTTG
261 ACTTG
* * *
37309263 TCAAAATTTGATCTGCTTCACTCCTG-TCAGTGAAGGTAAGATCTAGTCTATAGCCTGCTCCACT
1 TCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATATAGCCTGCTCCACT
* *
37309327 CCTGCTCAGTGAAGATAAGGCTGGTGATTGGAATCTACTCCATCGCCGGTACCTGGAGATAAGAT
66 CCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTACTCCATCGCCGGTACCTGGAGATAAAAT
*
37309392 TCATCAAAATTTGATCTGCTCCACTCCTGTCAGCGAAGATAAGATCTGGTGTTTAGCCTGCTCCA
131 TCATCAAAATTTGATCTACTCCACTCCTGTCAGCGAAGATAAGATCTGGTGTTTAGCCTGCTCCA
37309457 CTCCTGCTCAGTGAAGATAAG
196 CTCCTGCTCAGTGAAGATAAG
37309478 ATCTGATGAT
Statistics
Matches: 204, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
264 179 0.88
265 25 0.12
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (265 bp):
TCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATATAGCCTGCTCCACT
CCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTACTCCATCGCCGGTACCTGGAGATAAAAT
TCATCAAAATTTGATCTACTCCACTCCTGTCAGCGAAGATAAGATCTGGTGTTTAGCCTGCTCCA
CTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGGTACATGGAGATAAG
ACTTG
Found at i:37318987 original size:27 final size:27
Alignment explanation
Indices: 37318957--37319192 Score: 305
Period size: 27 Copynumber: 8.7 Consensus size: 27
37318947 TACTGAAATG
* *
37318957 CCCTCGATTTATAAAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
37318984 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
**
37319011 CCCTC-AGTTTACAGAATTACTATTTTA
1 CCCTCGA-TTTACAGAATTACCGTTTTA
*
37319038 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * *
37319065 CCC-CTAATTTACATAATTACCATTTTA
1 CCCTC-GATTTACAGAATTACCGTTTTA
* * *
37319092 CCCCCGATTTACATAATTATCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
37319119 CCCTCGATTTACAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
37319146 CCCTTGATTTACAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
37319173 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTACAGAATTAC
37319193 TAAAATACCC
Statistics
Matches: 184, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.01
27 180 0.98
28 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCGTTTTA
Found at i:37320461 original size:25 final size:25
Alignment explanation
Indices: 37320432--37320479 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
37320422 TTATACCATG
* * *
37320432 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
37320457 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
37320480 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:37320548 original size:20 final size:20
Alignment explanation
Indices: 37320523--37320581 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
37320513 TAAATATGGT
37320523 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
37320543 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
37320563 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
37320582 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:37320721 original size:25 final size:24
Alignment explanation
Indices: 37320632--37320725 Score: 104
Period size: 23 Copynumber: 4.0 Consensus size: 24
37320622 GAGGAAGTGA
* *
37320632 AAAAGGGCTTATGCCCTAGTTA-T
1 AAAAGGGCTTAGGCCCCAGTTATT
*
37320655 AAAAGGGCTTATG-CCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
* *
37320678 GAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
37320702 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTAGGCC-CCAGTTAT
37320726 ATGATAAAGC
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.11
23 24 0.39
24 19 0.31
25 11 0.18
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTAGGCCCCAGTTATT
Found at i:37320953 original size:31 final size:31
Alignment explanation
Indices: 37320918--37321019 Score: 123
Period size: 31 Copynumber: 3.1 Consensus size: 31
37320908 CGTTTACAGT
37320918 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
37320949 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
*
37320987 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
37321018 AA
1 AA
37321020 TATGAAAAGG
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
31 30 0.49
33 1 0.02
36 1 0.02
38 29 0.48
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:37320987 original size:38 final size:38
Alignment explanation
Indices: 37320935--37321042 Score: 189
Period size: 38 Copynumber: 2.8 Consensus size: 38
37320925 TCGGCCCAGT
37320935 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
37320973 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
37321011 AATATGAAATATGAAAAGGGCTACGGCCCAGT
1 AATATGAAATATGAAAA-GGCTTCGGCCCAGT
37321043 GCATGATTGA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
38 53 0.80
39 13 0.20
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:37323415 original size:68 final size:65
Alignment explanation
Indices: 37323343--37323488 Score: 168
Period size: 64 Copynumber: 2.2 Consensus size: 65
37323333 CATCATGTGT
* * * *
37323343 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTG-TACACCAT
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGGTGAGACACCAT
37323407 GTAG
62 GTAG
** * *
37323411 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGACACCATGTA
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGGTG-AGACACCATGTA
37323476 G
65 G
37323477 ACAAGAGAGCTA
1 ACAAGAGAGCTA
37323489 TGAGATAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
64 27 0.40
65 3 0.04
66 25 0.37
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (65 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGGTGAGACACCATGTAG
Found at i:37323448 original size:64 final size:63
Alignment explanation
Indices: 37323299--37323549 Score: 202
Period size: 68 Copynumber: 3.8 Consensus size: 63
37323289 TACAGATAGT
* ** * * * *
37323299 ATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTACAAGACAT
1 ATGTAGCTAGGTCGCATGGGTGGTACT-AGTGTACACCATGTAG-ACAAGAGAGCTAC--GAGA-
*
37323363 TATG
61 TA-A
* * *
37323367 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-GTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
37323431 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGACACCATGTAGACAAGAGAGCTATGAGATA
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-GTG--TACACCATGTAGACAAGAGAGCTACGAGATA
37323496 A
63 A
* * *
37323497 AT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-AGTGTACACCATGTAG-ACAAGAGAGC
37323550 CGAACTATAT
Statistics
Matches: 151, Mismatches: 26, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 27 0.18
65 24 0.16
66 33 0.22
67 1 0.01
68 46 0.30
69 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:37327952 original size:37 final size:36
Alignment explanation
Indices: 37327901--37327987 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
37327891 TACGAAGTCT
37327901 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
*
37327937 GTACCCGGACGTAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
37327974 TCACCCGGAACATA
1 T-ACCCGG-ACATA
37327988 TTTCTAAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.89
38 4 0.09
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:37328106 original size:51 final size:51
Alignment explanation
Indices: 37328036--37328210 Score: 282
Period size: 51 Copynumber: 3.5 Consensus size: 51
37328026 ATTCACATTA
* * *
37328036 GCCATTCGGCTTTACCACATATATATATACACTTTCACATTCATCACGTCG
1 GCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACGTCG
*
37328087 GCCATTAGGCCTTATCAC--ATATGTATACACTTTCACATTCATCACGTCG
1 GCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACGTCG
* *
37328136 GCCATTAGGCCTTATCACATATATATATACATTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACGTCG
37328187 GCCATTAGGCCTTATCACATATAT
1 GCCATTAGGCCTTATCACATATAT
37328211 TATTATGTAC
Statistics
Matches: 115, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
49 48 0.42
51 67 0.58
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (51 bp):
GCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACGTCG
Found at i:37328122 original size:49 final size:49
Alignment explanation
Indices: 37328056--37328210 Score: 265
Period size: 49 Copynumber: 3.1 Consensus size: 49
37328046 TTTACCACAT
37328056 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
*
37328105 ATATGTATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
* *
37328154 ATATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 --ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
37328205 ATATAT
1 ATATAT
37328211 TATTATGTAC
Statistics
Matches: 100, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
49 54 0.54
51 46 0.46
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
Found at i:37331277 original size:40 final size:41
Alignment explanation
Indices: 37331228--37331333 Score: 110
Period size: 41 Copynumber: 2.6 Consensus size: 41
37331218 GGCTCACTCG
* * **
37331228 ATTGTCTTCGGGACATAGCCCGG-TTATAGTTA-TTCGCACA
1 ATTGCCTTCGGGACATAGCCCGGATT-TAGTCACTTAACACA
37331268 ATTGCCTTCGGGA-ATTAGCCCGGATTTAGTCACTTAACACA
1 ATTGCCTTCGGGACA-TAGCCCGGATTTAGTCACTTAACACA
** *
37331309 AAAGCCTTCGGGACTTAGCCCGGAT
1 ATTGCCTTCGGGACATAGCCCGGAT
37331334 ACCATTCGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 1 0.02
40 25 0.45
41 29 0.53
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (41 bp):
ATTGCCTTCGGGACATAGCCCGGATTTAGTCACTTAACACA
Found at i:37332126 original size:40 final size:40
Alignment explanation
Indices: 37332077--37332308 Score: 383
Period size: 40 Copynumber: 5.8 Consensus size: 40
37332067 CCAGCATGAT
* * * *
37332077 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
37332117 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
37332157 TGCTCCTCGAAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
37332197 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
37332237 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
37332277 TGCTCTTCGGAACTTAGTCCGGATATATCACT
1 TGCTCCTCGGAACTTAGTCCGGATACATCACT
37332309 CTCAATTCTC
Statistics
Matches: 184, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 184 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:37333666 original size:46 final size:46
Alignment explanation
Indices: 37333616--37333791 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
37333606 TGGTTGAGCA
37333616 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37333662 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
37333707 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37333755 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37333792 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:37333772 original size:93 final size:93
Alignment explanation
Indices: 37333613--37333784 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
37333603 GGATGGTTGA
* *
37333613 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37333678 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
37333706 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37333771 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
37333785 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37336951 original size:37 final size:36
Alignment explanation
Indices: 37336900--37336986 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
37336890 TACGAAGTCT
37336900 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
*
37336936 GTACCCGGACGTAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
37336973 TCACCCGGAACATA
1 T-ACCCGG-ACATA
37336987 TTTCTAAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.89
38 4 0.09
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:37337121 original size:49 final size:49
Alignment explanation
Indices: 37337055--37337256 Score: 368
Period size: 49 Copynumber: 4.1 Consensus size: 49
37337045 TTTACCACAT
*
37337055 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
37337104 ATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
37337153 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
37337202 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
37337251 ATATAT
1 ATATAT
37337257 TATTATGTAC
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 149 1.00
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:37341843 original size:49 final size:48
Alignment explanation
Indices: 37341771--37342038 Score: 219
Period size: 49 Copynumber: 5.6 Consensus size: 48
37341761 TGTGTGTGCT
* * *
37341771 AGTGTAAGACCTTTCTGAGACATGGCATCAGCACCGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGC-CCAATAGATGAGAGCC
* * * *
37341820 AGTGTAAGACCTGTCTAGGACATGGCATCAGCCTCAAGATATGCA-AGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCC-CAATAGATG-AGAGCC
* * * * * * *
37341869 AGTGTCAGACCTATCTGGGACATGGCATCAG--C--TTGAGGTGTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCCAATAGATGAGAGCC
* * * *
37341913 AGAGTAAGACCTGTTTGGGACATGGCATC-GACACAGATA-AGTGAGGGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAG-CCCA-ATAGA-TGAGAGCC
* **
37341962 AGTGTAAGACCTATCTGGGACATGGCATCAGCCTCAATCTATG-GAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCC-CAATAGATGAG-AGCC
37342011 AGTGTAAGACCTGTCTGGGACATGGCAT
1 AGTGTAAGACCTGTCTGGGACATGGCAT
37342039 TGACTTAGAT
Statistics
Matches: 171, Mismatches: 34, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
43 1 0.01
44 28 0.16
46 2 0.01
48 3 0.02
49 132 0.77
50 5 0.03
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCAGCCCAATAGATGAGAGCC
Found at i:37342021 original size:142 final size:142
Alignment explanation
Indices: 37341774--37342038 Score: 383
Period size: 142 Copynumber: 1.9 Consensus size: 142
37341764 GTGTGCTAGT
* *
37341774 GTAAGACCTTTCTGAGACATGGCATCAGCACCGATAGATGAGAGCCAGTGTAAGACCTGTCTAGG
1 GTAAGACCTTTCTGAGACATGGCATCAGCACAGATAGATGAGAGCCAGTGTAAGACCTATCTAGG
* *
37341839 ACATGGCATCAGCCTCAAGATATGCAAGCTAGTGTCAGACCTATCTGGGACATGGCATCAGCTTG
66 ACATGGCATCAGCCTCAAGATATGCAAGCCAGTGTAAGACCTATCTGGGACATGGCATCAGCTTG
37341904 AGGTGTGTCAGA
131 AGGTGTGTCAGA
* *
37341916 GTAAGACCTGTT-TGGGACATGGCATC-GACACAGATA-AGTGAGGGCCAGTGTAAGACCTATCT
1 GTAAGACCT-TTCTGAGACATGGCATCAG-CACAGATAGA-TGAGAGCCAGTGTAAGACCTATCT
* ** * *
37341978 GGGACATGGCATCAGCCTCAATCTATGGAAGCCAGTGTAAGACCTGTCTGGGACATGGCAT
63 AGGACATGGCATCAGCCTCAAGATATGCAAGCCAGTGTAAGACCTATCTGGGACATGGCAT
37342039 TGACTTAGAT
Statistics
Matches: 109, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
141 2 0.02
142 105 0.96
143 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (142 bp):
GTAAGACCTTTCTGAGACATGGCATCAGCACAGATAGATGAGAGCCAGTGTAAGACCTATCTAGG
ACATGGCATCAGCCTCAAGATATGCAAGCCAGTGTAAGACCTATCTGGGACATGGCATCAGCTTG
AGGTGTGTCAGA
Found at i:37344792 original size:40 final size:40
Alignment explanation
Indices: 37344747--37344876 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
37344737 CGGAATACAA
37344747 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
37344787 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * * *
37344827 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCAGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
37344867 CCGGATATAA
1 CCGGATATAA
37344877 TTTCCAGCAA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:37349304 original size:27 final size:28
Alignment explanation
Indices: 37349248--37349317 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
37349238 TAATTTGTAC
*
37349248 AGCACTAAGTGTGCAAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
37349276 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
37349303 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
37349318 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:37354595 original size:7 final size:7
Alignment explanation
Indices: 37354585--37354666 Score: 56
Period size: 7 Copynumber: 11.0 Consensus size: 7
37354575 ATTGATAATT
37354585 AAAAATA
1 AAAAATA
*
37354592 AAAATTA
1 AAAAATA
*
37354599 AAAATTA
1 AAAAATA
37354606 AAAAATA
1 AAAAATA
*
37354613 AAAATTA
1 AAAAATA
*
37354620 AAAAGTA
1 AAAAATA
**
37354627 ATTTTAATA
1 A--AAAATA
*
37354636 AAAATTA
1 AAAAATA
37354643 AAAACATA
1 AAAA-ATA
37354651 AAATAATA
1 AAA-AATA
37354659 AATAAATA
1 AA-AAATA
37354667 TTTTTAAACA
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
7 39 0.66
8 14 0.24
9 6 0.10
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.26
Consensus pattern (7 bp):
AAAAATA
Found at i:37354597 original size:13 final size:13
Alignment explanation
Indices: 37354581--37354664 Score: 62
Period size: 14 Copynumber: 6.0 Consensus size: 13
37354571 CAAAATTGAT
37354581 AATTAAAAATAAA
1 AATTAAAAATAAA
37354594 AATTAAAAATTAAA
1 AATTAAAAA-TAAA
*
37354608 AAATAAAAATTAAA
1 AATTAAAAA-TAAA
* *
37354622 AAGTAATTTTAATAAA
1 AATTAA---AAATAAA
*
37354638 AATTAAAAACATAA
1 AATTAAAAATA-AA
37354652 AA-TAATAAATAAA
1 AATTAA-AAATAAA
37354665 TATTTTTAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
13 17 0.29
14 30 0.52
16 9 0.16
17 2 0.03
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.26
Consensus pattern (13 bp):
AATTAAAAATAAA
Found at i:37354597 original size:20 final size:21
Alignment explanation
Indices: 37354572--37354660 Score: 65
Period size: 23 Copynumber: 4.1 Consensus size: 21
37354562 AGAAATAACC
* *
37354572 AAAATTGATAATTAAAAATA-A
1 AAAATTAAAAATTAAAAA-ATA
37354593 AAA-TTAAAAATTAAAAAATA
1 AAAATTAAAAATTAAAAAATA
* **
37354613 AAAATTAAAAAGTAATTTTAATA
1 AAAATTAAAAATTAA--AAAATA
*
37354636 AAAATTAAAAACATAAAATAATA
1 AAAATTAAAAA-TTAAAA-AATA
37354659 AA
1 AA
37354661 TAAATATTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
19 1 0.02
20 16 0.30
21 13 0.24
23 21 0.39
24 3 0.06
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAATTAAAAATTAAAAAATA
Found at i:37354602 original size:14 final size:14
Alignment explanation
Indices: 37354584--37354623 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
37354574 AATTGATAAT
*
37354584 TAAAAA-TAAAAAT
1 TAAAAATTAAAAAA
37354597 TAAAAATTAAAAAA
1 TAAAAATTAAAAAA
37354611 TAAAAATTAAAAA
1 TAAAAATTAAAAA
37354624 GTAATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 6 0.24
14 19 0.76
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAAAATTAAAAAA
Found at i:37372749 original size:40 final size:39
Alignment explanation
Indices: 37372584--37372767 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
37372574 AAATTGAATG
* * *
37372584 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
37372624 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
37372664 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
37372704 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
37372743 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
37372768 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:37372792 original size:80 final size:81
Alignment explanation
Indices: 37372624--37372812 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
37372614 GCTGGAAATT
* * * *
37372624 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
37372689 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
37372705 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
37372768 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
37372784 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
37372813 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:37379501 original size:40 final size:40
Alignment explanation
Indices: 37379457--37379683 Score: 314
Period size: 40 Copynumber: 5.7 Consensus size: 40
37379447 CCAACCCAAT
* * *
37379457 TGCCTTCGGGATTTAGCCC-G-AATGCAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGAAAT--AACAACCAGCACGAA
* * * *
37379497 TGCCTTTGGGACTTAACCCGGAAATAGCGACCAGCAAGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
37379537 TGCCTTCGGGGCTTAACCCGGAAATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* *
37379577 TGCCTTCGGGACTTAACTCGGAAATAACAACCAGCATGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
37379617 TGCCTTCGGGACTTAACCCGGAAATAGCAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
37379657 TGCCTTCGGGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGAAATAA
37379684 TCCTCAATTG
Statistics
Matches: 165, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 161 0.98
41 1 0.01
42 3 0.02
ACGTcount: A:0.32, C:0.28, G:0.22, T:0.18
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
Found at i:37389128 original size:13 final size:13
Alignment explanation
Indices: 37389110--37389136 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37389100 GCTCGGTAGG
37389110 GACACGCCCGTGT
1 GACACGCCCGTGT
37389123 GACACGCCCGTGT
1 GACACGCCCGTGT
37389136 G
1 G
37389137 CGATTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:37389670 original size:20 final size:20
Alignment explanation
Indices: 37389645--37389684 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
37389635 ACGTGACCAC
37389645 GAGTCATTTGTCTTTGTGAT
1 GAGTCATTTGTCTTTGTGAT
37389665 GAGTCATTTGTCTTTGTGAT
1 GAGTCATTTGTCTTTGTGAT
37389685 AAATGGCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.10, G:0.25, T:0.50
Consensus pattern (20 bp):
GAGTCATTTGTCTTTGTGAT
Found at i:37395650 original size:46 final size:46
Alignment explanation
Indices: 37395501--37395716 Score: 188
Period size: 46 Copynumber: 4.6 Consensus size: 46
37395491 ATTCGTGTGT
* * * * *
37395501 GAGCTAGTGTAAGACATATCTGGGACATGCATC-GACCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAG-CCTCGA-GACGA
* * * *
37395547 GAGCCAGTGTCAGACCATGTCTGGGACATGGCATCAGCATTGAGACAA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGACGA
* * *
37395595 GGGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACG-A
* * *
37395642 -AGCCAGTGTAAGACATGTCTAGGACATGCATCAG-CTACAAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGACGA
* *
37395687 TAGTCAGTGTAAGACCATGTCTGGGACATG
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG
37395717 GAATTGACTT
Statistics
Matches: 138, Mismatches: 24, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
45 3 0.02
46 72 0.52
47 42 0.30
48 19 0.14
49 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGA
Found at i:37395742 original size:47 final size:47
Alignment explanation
Indices: 37395547--37395768 Score: 186
Period size: 47 Copynumber: 4.7 Consensus size: 47
37395537 CACATTATGA
* * *
37395547 GAGCCAGTGTCAGACCATGTCTGGGACATGGCATCAGCATTGAGACAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-TCGAGACAT
* * * *
37395595 GGGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CTCGAGACAT
* * * *
37395641 AAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCTACAAGATGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCT-CGAGA-CAT
* * * * *
37395688 -AGTCAGTGTAAGACCATGTCTGGGACATGGAAT-TGACTTGAGATAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CTCGAGACAT
** *
37395734 GAGCCAGTGTAAGACTGTGTCTAGGACATGGCATC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
37395769 GACACCTTAC
Statistics
Matches: 139, Mismatches: 27, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
45 2 0.01
46 60 0.43
47 61 0.44
48 16 0.12
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCTCGAGACAT
Found at i:37395755 original size:140 final size:141
Alignment explanation
Indices: 37395506--37395769 Score: 329
Period size: 140 Copynumber: 1.9 Consensus size: 141
37395496 TGTGTGAGCT
* ** *
37395506 AGTGTAAGACATATCTGGGACATGCATCGACCACATTATGAGAGCCAGTGTCAGACCATGTCTGG
1 AGTGTAAGACATATCTAGGACATGCATCGACCACAAGATGAGAGCCAGTGTAAGACCATGTCTGG
* * * *
37395571 GACATGGCATCAGCATTGAGACAAGGGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG
66 GACATGGAATCAGCATTGAGACAAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGGCCTCG
37395635 AGACGTAAGCC
131 AGACGTAAGCC
* * * *
37395646 AGTGTAAGACATGTCTAGGACATGCATC-AGCTACAAGATGATAGTCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATATCTAGGACATGCATCGA-CCACAAGATGAGAGCCAGTGTAAGACCATGTCTG
* * * *
37395710 GGACATGGAAT-TG-ACTTGAGATATGAGCCAGTGTAAGACTGTGTCTAGGACATGGCATCG
65 GGACATGGAATCAGCA-TTGAGACAAGAGCCAGTGTAAGAC-ATGTCTAGGACATGGCATCG
37395770 ACACCTTACC
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
138 1 0.01
139 22 0.21
140 75 0.72
141 6 0.06
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATATCTAGGACATGCATCGACCACAAGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGAATCAGCATTGAGACAAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGGCCTCG
AGACGTAAGCC
Found at i:37421869 original size:40 final size:39
Alignment explanation
Indices: 37421709--37421871 Score: 247
Period size: 39 Copynumber: 4.2 Consensus size: 39
37421699 TGTGTATGAA
* *
37421709 TGTGCGAATTGTGATATCCGAGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
37421748 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAA-
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
37421786 TGTTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TG-TGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
37421826 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
37421866 TGTGCG
1 TGTGCG
37421872 GGTTACCATA
Statistics
Matches: 113, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
38 2 0.02
39 92 0.81
40 19 0.17
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:37421887 original size:40 final size:40
Alignment explanation
Indices: 37421730--37421907 Score: 148
Period size: 39 Copynumber: 4.5 Consensus size: 40
37421720 TGATATCCGA
* *** *
37421730 GCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAACCGG
* * ** *
37421769 GCTAAG-CCCGAAGGCA-ATGTTGCGAGCTATGATATCCGG
1 GCTAAGTCCCGAAGGCATTTG-TGCGAGTTACCATAACCGG
* *** *
37421808 GCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAACCGG
* *
37421847 GTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAACCGG
* *
37421887 GCTATGTCCCGAAGGCGTTTG
1 GCTAAGTCCCGAAGGCATTTG
37421908 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.02
39 71 0.59
40 47 0.39
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.24
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAACCGG
Found at i:37429215 original size:39 final size:39
Alignment explanation
Indices: 37429161--37429323 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
37429151 TGTGTATGAA
*
37429161 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
37429200 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * **
37429239 GGTGCGAGCTATGATATCCGGGCTAAGCTAGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
37429278 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
37429318 TGTGCG
1 TGTGCG
37429324 GGTTCCCATA
Statistics
Matches: 110, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 95 0.86
40 15 0.14
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:37432952 original size:60 final size:62
Alignment explanation
Indices: 37432817--37432978 Score: 204
Period size: 60 Copynumber: 2.7 Consensus size: 62
37432807 TTTCTGAAGA
* * * * * * *
37432817 AAAGCCTTTGTGGTGAGTACTGGTTATAAAGGATAGCTTT-TGTAGCACAACTTTGGATAGG
1 AAAGCCTTTATGGCGAGTACTGGATATAAAGGATAGCTTTGTGTAGCACAACTCTAGACAAG
37432878 AAAGCCTTTATGGCGAGTACTGGATATAAAGGATAGCTTTGTG-A-CACAACTCTAGACAAG
1 AAAGCCTTTATGGCGAGTACTGGATATAAAGGATAGCTTTGTGTAGCACAACTCTAGACAAG
* * * *
37432938 AAAGCCTTTTTGGCGAGCACTAGATATAAAGGATAACTTTG
1 AAAGCCTTTATGGCGAGTACTGGATATAAAGGATAGCTTTG
37432979 AGGAAAAACT
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
60 49 0.55
61 38 0.43
62 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (62 bp):
AAAGCCTTTATGGCGAGTACTGGATATAAAGGATAGCTTTGTGTAGCACAACTCTAGACAAG
Found at i:37432989 original size:60 final size:60
Alignment explanation
Indices: 37432877--37432990 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
37432867 CTTTGGATAG
* * * * *
37432877 GAAAGCCTTTATGGCGAGTACTGGATATAAAGGATAGCTTTGTGACACAACTCTAGACAA
1 GAAAGCCTTTATGGCGAGCACTAGATATAAAGGATAACTTTGGGACAAAACTCTAGACAA
*
37432937 GAAAGCCTTTTTGGCGAGCACTAGATATAAAGGATAACTTTGAGGA-AAAACTCT
1 GAAAGCCTTTATGGCGAGCACTAGATATAAAGGATAACTTTG-GGACAAAACTCT
37432991 GGAAAGGTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
60 45 0.96
61 2 0.04
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (60 bp):
GAAAGCCTTTATGGCGAGCACTAGATATAAAGGATAACTTTGGGACAAAACTCTAGACAA
Found at i:37433308 original size:16 final size:16
Alignment explanation
Indices: 37433287--37433317 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37433277 TTTCACTTTA
*
37433287 TGTCTTTTGTATTTTT
1 TGTCTTTTATATTTTT
37433303 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
37433318 GTATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.10, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTT
Found at i:37434725 original size:37 final size:36
Alignment explanation
Indices: 37434674--37434749 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
37434664 ATTCTAAAAA
*
37434674 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
37434710 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
37434747 TAA
1 TAA
37434750 GATAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:37450894 original size:12 final size:12
Alignment explanation
Indices: 37450872--37450900 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37450862 GAAAATTATT
37450872 AAATT-AAAATA
1 AAATTAAAAATA
37450883 AAATTAAAAATA
1 AAATTAAAAATA
37450895 AAATTA
1 AAATTA
37450901 GATTGCAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AAATTAAAAATA
Found at i:37455203 original size:19 final size:19
Alignment explanation
Indices: 37455179--37455224 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
37455169 TGTGGGTAGT
*
37455179 CCGTGTGGATTTCATACGC
1 CCGTGTGGATTTCACACGC
37455198 CCGTGTGGATTTCACACGC
1 CCGTGTGGATTTCACACGC
37455217 CCGTGTGG
1 CCGTGTGG
37455225 CTAGGCCACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.13, C:0.28, G:0.30, T:0.28
Consensus pattern (19 bp):
CCGTGTGGATTTCACACGC
Found at i:37459675 original size:42 final size:42
Alignment explanation
Indices: 37459504--37459679 Score: 118
Period size: 42 Copynumber: 4.0 Consensus size: 42
37459494 GGGTGCCAAA
* * * * * *
37459504 GCCATGTCTCAGACATGGTCTTACATAGAACTACACATCGAT
1 GCCATGTCCCAGACATGGTCTTATACAAAACCACATATCGAT
* * ** * * *
37459546 GCCATATCCCAGATATGGTCTTATACGAAGTCTCAAATCGGTGTCGAC
1 GCCATGTCCCAGACATGGTCTTATAC-AAAAC-C--A-C-ATATCGAT
* *** *
37459594 GCCATGTCCCGGACATGGTCTTATACGGGACCTCATATCGAT
1 GCCATGTCCCAGACATGGTCTTATACAAAACCACATATCGAT
* *
37459636 GCCATGTCCCAGACATGGTCTTATACAAAATCACTTATCGAT
1 GCCATGTCCCAGACATGGTCTTATACAAAACCACATATCGAT
37459678 GC
1 GC
37459680 TTAAGCCATA
Statistics
Matches: 98, Mismatches: 30, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
42 63 0.64
43 3 0.03
46 2 0.02
47 3 0.03
48 27 0.28
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (42 bp):
GCCATGTCCCAGACATGGTCTTATACAAAACCACATATCGAT
Found at i:37459688 original size:90 final size:90
Alignment explanation
Indices: 37459540--37459727 Score: 207
Period size: 90 Copynumber: 2.1 Consensus size: 90
37459530 AGAACTACAC
* * * * * * *
37459540 ATCGATGCCATATCCCAGATATGGTCTTATACGAAGTCTCAAATCGGTGTCGACGCCATGTCCCG
1 ATCGATGCCATATCCCAGACATGGTCTTATACAAAATCACAAATCGATGTCGAAGCCATATCCCG
* *
37459605 GACATGGTCTTATACGGGACCTCAT
66 AACATGGTCTTACACGGGACCTCAT
* ** *
37459630 ATCGATGCCATGTCCCAGACATGGTCTTATACAAAATCACTTATCGATG-CTTAAGCCATATCCC
1 ATCGATGCCATATCCCAGACATGGTCTTATACAAAATCACAAATCGATGTC-GAAGCCATATCCC
* * * *
37459694 TAATATGGTCTTACACGGGATCTCGT
65 GAACATGGTCTTACACGGGACCTCAT
37459720 ATCGATGC
1 ATCGATGC
37459728 TGGTGCCATG
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
89 1 0.01
90 79 0.99
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (90 bp):
ATCGATGCCATATCCCAGACATGGTCTTATACAAAATCACAAATCGATGTCGAAGCCATATCCCG
AACATGGTCTTACACGGGACCTCAT
Found at i:37459723 original size:48 final size:48
Alignment explanation
Indices: 37459671--37459765 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
37459661 CAAAATCACT
* *
37459671 TATCGATGCTTAAGCCATATCCCT-AATATGGTCTTACACGGGATCTCG
1 TATCGATGCTGAAGCCATAT-CCTGAACATGGTCTTACACGGGATCTCG
** * *
37459719 TATCGATGCTGGTGCCATGTCCTGGACATGGTCTTACACGGGATCTC
1 TATCGATGCTGAAGCCATATCCTGAACATGGTCTTACACGGGATCTC
37459766 ATAAATCATG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
47 3 0.08
48 37 0.93
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (48 bp):
TATCGATGCTGAAGCCATATCCTGAACATGGTCTTACACGGGATCTCG
Found at i:37465389 original size:42 final size:41
Alignment explanation
Indices: 37465305--37465394 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 41
37465295 AATCGGTGCT
* * *
37465305 GATGCCATGTCCCGAACGTGGTCTTATACGGAACATCATATC
1 GATGCCATGTCCCAAACATGGTCTTATAC-GAAAATCATATC
*
37465347 GATGCCATGTCCTAAACATGGTCTTATAC-AAAATCACTTATC
1 GATGCCATGTCCCAAACATGGTCTTATACGAAAATCA--TATC
37465389 GATGCC
1 GATGCC
37465395 GAAGCCATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 6 0.14
42 36 0.86
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (41 bp):
GATGCCATGTCCCAAACATGGTCTTATACGAAAATCATATC
Found at i:37465402 original size:90 final size:90
Alignment explanation
Indices: 37465211--37465424 Score: 200
Period size: 90 Copynumber: 2.4 Consensus size: 90
37465201 CCAAATAGGG
* * * * *
37465211 TGCCAAAGCCATGTCTCAGACATGGTCTTACATGGAACTACACATCGATGCCATATCCCAGATAT
1 TGCCGAAGCCATGTCCCAGACATGGTCTTACACGGAACTACACATCGATGCCATATCCCAAACAT
* * *
37465276 AGTCTTATACAAAGTCTCAAATCGG
66 AGTCTTATACAAAATCACAAATCGA
* * * * * * *
37465301 TGCTGATGCCATGTCCC-GAACGTGGTCTTATACGGAAC-ATCATATCGATGCCATGTCCTAAAC
1 TGCCGAAGCCATGTCCCAG-ACATGGTCTTACACGGAACTA-CACATCGATGCCATATCCCAAAC
* **
37465364 ATGGTCTTATACAAAATCACTTATCGA
64 ATAGTCTTATACAAAATCACAAATCGA
* *
37465391 TGCCGAAGCCATATCCCTA-ATATGGTCTTACACG
1 TGCCGAAGCCATGTCCC-AGACATGGTCTTACACG
37465425 AGATCTCGTA
Statistics
Matches: 96, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
89 2 0.02
90 94 0.98
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (90 bp):
TGCCGAAGCCATGTCCCAGACATGGTCTTACACGGAACTACACATCGATGCCATATCCCAAACAT
AGTCTTATACAAAATCACAAATCGA
Found at i:37465464 original size:48 final size:47
Alignment explanation
Indices: 37465350--37465470 Score: 134
Period size: 48 Copynumber: 2.5 Consensus size: 47
37465340 TCATATCGAT
* * *
37465350 GCCATGTCCTAAACATGGTCTTATACAAAATCACTTATCGATGCCGAA
1 GCCATGTCCT-AACATGGTCTTACACAAAATCACGTATAGATGCCGAA
* * * * *
37465398 GCCATATCCCTAATATGGTCTTACACGAGATCTCGTATAGATGCCGAA
1 GCCATGT-CCTAACATGGTCTTACACAAAATCACGTATAGATGCCGAA
*
37465446 GCCATGTCCTGGACATGGTCTTACA
1 GCCATGTCCT-AACATGGTCTTACA
37465471 TGGGATCTTA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
47 3 0.05
48 54 0.90
49 3 0.05
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (47 bp):
GCCATGTCCTAACATGGTCTTACACAAAATCACGTATAGATGCCGAA
Found at i:37469020 original size:80 final size:80
Alignment explanation
Indices: 37468936--37469084 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
37468926 TATGGTAACC
* * * *
37468936 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
37469000 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
37469016 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
37469081 CCGG
66 CCGG
37469085 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:37469026 original size:40 final size:38
Alignment explanation
Indices: 37468977--37469084 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
37468967 ATCACGATTT
*
37468977 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
37469017 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
37469057 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
37469085 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:37477135 original size:80 final size:80
Alignment explanation
Indices: 37477051--37477199 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
37477041 TATGGTAACC
* * * *
37477051 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
37477115 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
37477131 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
37477196 CCGG
66 CCGG
37477200 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:37477141 original size:40 final size:38
Alignment explanation
Indices: 37477092--37477199 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
37477082 ATCACGATTT
*
37477092 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
37477132 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
37477172 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
37477200 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:37481330 original size:80 final size:80
Alignment explanation
Indices: 37481246--37481394 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
37481236 TATGGTAACC
* * * *
37481246 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
37481310 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
37481326 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
37481391 CCGG
66 CCGG
37481395 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:37481336 original size:40 final size:38
Alignment explanation
Indices: 37481287--37481394 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
37481277 ATCACGATTT
*
37481287 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
37481327 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
37481367 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
37481395 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:37489441 original size:80 final size:80
Alignment explanation
Indices: 37489357--37489505 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
37489347 TATGGTAACC
* * * *
37489357 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
37489421 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
37489437 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
37489502 CCGG
66 CCGG
37489506 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:37489447 original size:40 final size:38
Alignment explanation
Indices: 37489398--37489505 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
37489388 ATCACGATTT
*
37489398 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
37489438 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
37489478 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
37489506 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:37494130 original size:16 final size:16
Alignment explanation
Indices: 37494109--37494140 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
37494099 AAATGTGTCC
37494109 ATATTATAGTAAACAT
1 ATATTATAGTAAACAT
37494125 ATATTATAGTAAACAT
1 ATATTATAGTAAACAT
37494141 GTAATTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (16 bp):
ATATTATAGTAAACAT
Found at i:37499173 original size:43 final size:42
Alignment explanation
Indices: 37499115--37499263 Score: 144
Period size: 43 Copynumber: 3.5 Consensus size: 42
37499105 TAATGCCGAC
* * *
37499115 GTCCCAGAC-GTGGTCTTACATGTTATTCAATATCGATGCCTCT
1 GTCCCAGACAG-GGTCTTACACGTAATTCAATAT-GATGCCTAT
*
37499158 GTCCCAGACAGGGTCTTACACG-AAATCAGATATGATG-CTGAT
1 GTCCCAGACAGGGTCTTACACGTAATTCA-ATATGATGCCT-AT
* * *
37499200 GTCCCAGACATGGTCTTATACGTAAATCTCAAT-TGAGGCCTAT
1 GTCCCAGACAGGGTCTTACACGT-AAT-TCAATATGATGCCTAT
*
37499243 GTCCCAGACACGGTCTTACAC
1 GTCCCAGACAGGGTCTTACAC
37499264 AAAATCAGAT
Statistics
Matches: 89, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
41 2 0.02
42 29 0.33
43 48 0.54
44 7 0.08
45 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACACGTAATTCAATATGATGCCTAT
Found at i:37499208 original size:42 final size:41
Alignment explanation
Indices: 37499157--37499280 Score: 135
Period size: 43 Copynumber: 3.0 Consensus size: 41
37499147 TCGATGCCTC
*
37499157 TGTCCCAGACAGGGTCTTACACGAAATCAGATATGATGCTGA
1 TGTCCCAGACACGGTCTTACACGAAATCAGATATGATGCT-A
* * *
37499199 TGTCCCAGACATGGTCTTATACGTAAATCTCA-AT-TGAGGCCTA
1 TGTCCCAGACACGGTCTTACACG-AAA--TCAGATATGATG-CTA
* *
37499242 TGTCCCAGACACGGTCTTACACAAAATCAGATACGATGC
1 TGTCCCAGACACGGTCTTACACGAAATCAGATATGATGC
37499281 CTATAACACC
Statistics
Matches: 68, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
40 3 0.04
41 3 0.04
42 27 0.40
43 28 0.41
44 4 0.06
45 3 0.04
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (41 bp):
TGTCCCAGACACGGTCTTACACGAAATCAGATATGATGCTA
Found at i:37499284 original size:42 final size:42
Alignment explanation
Indices: 37499148--37499284 Score: 136
Period size: 42 Copynumber: 3.2 Consensus size: 42
37499138 TATTCAATAT
* * *
37499148 CGATGCCTCTGTCCCAGACAGGGTCTTACACGAAATCAGATA
1 CGATGCCTATGTCCCAGACACGGTCTTACACAAAATCAGATA
* * * *
37499190 TGATG-CTGATGTCCCAGACATGGTCTTATACGTAAATCTCA-AT-
1 CGATGCCT-ATGTCCCAGACACGGTCTTACAC--AAA-ATCAGATA
* *
37499233 TGAGGCCTATGTCCCAGACACGGTCTTACACAAAATCAGATA
1 CGATGCCTATGTCCCAGACACGGTCTTACACAAAATCAGATA
37499275 CGATGCCTAT
1 CGATGCCTAT
37499285 AACACCCCGA
Statistics
Matches: 76, Mismatches: 12, Indels: 14
0.75 0.12 0.14
Matches are distributed among these distances:
40 3 0.04
41 7 0.09
42 32 0.42
43 25 0.33
44 6 0.08
45 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (42 bp):
CGATGCCTATGTCCCAGACACGGTCTTACACAAAATCAGATA
Found at i:37500775 original size:28 final size:29
Alignment explanation
Indices: 37500743--37500841 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
37500733 ATAATAAGCC
*
37500743 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
37500771 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
37500799 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
37500828 CGCACACTTAGTGC
1 CGCACACTTAGTGC
37500842 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:37508822 original size:28 final size:28
Alignment explanation
Indices: 37508751--37508849 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
37508741 ATAATAAGCC
*
37508751 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATCGAACT
* *
37508779 CACACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCGAACT
* * *
37508807 CGCACACTTAGTGCTATACAATTTGAACC
1 CGCACACTTAGTGCTATATAA-TCGAACT
37508836 CGCACACTTAGTGC
1 CGCACACTTAGTGC
37508850 CAATCTCATG
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 42 0.69
29 19 0.31
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCGAACT
Found at i:37517765 original size:43 final size:43
Alignment explanation
Indices: 37517716--37517936 Score: 189
Period size: 43 Copynumber: 5.2 Consensus size: 43
37517706 CCCAGACGTA
* * * *
37517716 GTCTTACATGTAATTCA-ATATCGATGCCTCTGTCCCAGACAGG
1 GTCTTACACGTAAATCAGATA-CGATGCCTATGTCCCAGACACG
* * *
37517759 GTCTTACACG-AAATCAGATACGATGTCGATGTCCCAGACATG
1 GTCTTACACGTAAATCAGATACGATGCCTATGTCCCAGACACG
* * ** * * *
37517801 GTCATATACGTAAATCTCAAACGAGGCCTGTGTCCCAGACACG
1 GTCTTACACGTAAATCAGATACGATGCCTATGTCCCAGACACG
* * * *
37517844 GTCTTACATG-AAATCAGATACGATGTCGATGTCCCAGACATG
1 GTCTTACACGTAAATCAGATACGATGCCTATGTCCCAGACACG
* * * * *
37517886 GTCTTATACGTAAATCACA-ATCGAGGCCTGTTTCCCAGACACG
1 GTCTTACACGTAAATCAGATA-CGATGCCTATGTCCCAGACACG
37517929 GTCTTACA
1 GTCTTACA
37517937 TGATGTCTCA
Statistics
Matches: 137, Mismatches: 37, Indels: 8
0.75 0.20 0.04
Matches are distributed among these distances:
42 64 0.47
43 73 0.53
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (43 bp):
GTCTTACACGTAAATCAGATACGATGCCTATGTCCCAGACACG
Found at i:37517796 original size:42 final size:43
Alignment explanation
Indices: 37517704--37517902 Score: 190
Period size: 42 Copynumber: 4.7 Consensus size: 43
37517694 CAATGTTGAC
* * * * * **
37517704 GTCCCAGACGTAGTCTTACATGTAATTCA-ATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATCAGATA-CGATGTCGAT
*
37517747 GTCCCAGACAGGGTCTTACACG-AAATCAGATACGATGTCGAT
1 GTCCCAGACATGGTCTTACACGTAAATCAGATACGATGTCGAT
* * ** * * *
37517789 GTCCCAGACATGGTCATATACGTAAATCTCAAACGAGGCCTG-T
1 GTCCCAGACATGGTCTTACACGTAAATCAGATACGATGTC-GAT
* *
37517832 GTCCCAGACACGGTCTTACATG-AAATCAGATACGATGTCGAT
1 GTCCCAGACATGGTCTTACACGTAAATCAGATACGATGTCGAT
*
37517874 GTCCCAGACATGGTCTTATACGTAAATCA
1 GTCCCAGACATGGTCTTACACGTAAATCA
37517903 CAATCGAGGC
Statistics
Matches: 123, Mismatches: 28, Indels: 10
0.76 0.17 0.06
Matches are distributed among these distances:
41 1 0.01
42 63 0.51
43 58 0.47
44 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATCAGATACGATGTCGAT
Found at i:37517857 original size:85 final size:85
Alignment explanation
Indices: 37517741--37517939 Score: 335
Period size: 85 Copynumber: 2.3 Consensus size: 85
37517731 CAATATCGAT
* * *
37517741 GCCTCTGTCCCAGACAGGGTCTTACACGAAATCAGATACGATGTCGATGTCCCAGACATGGTCAT
1 GCCTGTGTCCCAGACACGGTCTTACATGAAATCAGATACGATGTCGATGTCCCAGACATGGTCAT
*
37517806 ATACGTAAATCTCAAACGAG
66 ATACGTAAATCACAAACGAG
*
37517826 GCCTGTGTCCCAGACACGGTCTTACATGAAATCAGATACGATGTCGATGTCCCAGACATGGTCTT
1 GCCTGTGTCCCAGACACGGTCTTACATGAAATCAGATACGATGTCGATGTCCCAGACATGGTCAT
*
37517891 ATACGTAAATCACAATCGAG
66 ATACGTAAATCACAAACGAG
*
37517911 GCCTGTTTCCCAGACACGGTCTTACATGA
1 GCCTGTGTCCCAGACACGGTCTTACATGA
37517940 TGTCTCAGAC
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 107 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (85 bp):
GCCTGTGTCCCAGACACGGTCTTACATGAAATCAGATACGATGTCGATGTCCCAGACATGGTCAT
ATACGTAAATCACAAACGAG
Found at i:37527105 original size:49 final size:47
Alignment explanation
Indices: 37527017--37527144 Score: 148
Period size: 49 Copynumber: 2.7 Consensus size: 47
37527007 CAAGGTGTGT
*
37527017 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTGAGAGC
1 CAGTGTAACACCTGTCTGGGACATGGCATCGACACAGAT-A-TGAGAGC
** *
37527066 CAGTGTAACACCTGTCTGGGACATGGCATCGACTTAGATATGAGAGT
1 CAGTGTAACACCTGTCTGGGACATGGCATCGACACAGATATGAGAGC
* * * * *
37527113 CAGTATAATACCATGTTTGGAACATAGCATCG
1 CAGTGTAACACC-TGTCTGGGACATGGCATCG
37527145 GCTTCGTACC
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
47 16 0.23
48 17 0.25
49 36 0.52
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (47 bp):
CAGTGTAACACCTGTCTGGGACATGGCATCGACACAGATATGAGAGC
Found at i:37528420 original size:22 final size:21
Alignment explanation
Indices: 37528395--37528436 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
37528385 GTCAAGAAGG
37528395 CCACACGGGCGTGTCGCCCCTT
1 CCACACGGGCGTGT-GCCCCTT
* *
37528417 CCACATGGGTGTGTGCCCCT
1 CCACACGGGCGTGTGCCCCT
37528437 ATTTCAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.10, C:0.40, G:0.29, T:0.21
Consensus pattern (21 bp):
CCACACGGGCGTGTGCCCCTT
Found at i:37530379 original size:17 final size:16
Alignment explanation
Indices: 37530357--37530416 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 16
37530347 ATTTTCATAG
37530357 TTTAATATTAAATTAAA
1 TTTAATATTAAATT-AA
*
37530374 TTTAATATTAAAGTGGTTA
1 TTTAATATTAAA-T--TAA
37530393 TCTTAATATTAAATTTAA
1 T-TTAATATTAAA-TTAA
37530411 TTTAAT
1 TTTAAT
37530417 GTTTATCTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 17 0.47
18 4 0.11
19 2 0.06
20 13 0.36
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (16 bp):
TTTAATATTAAATTAA
Found at i:37533138 original size:26 final size:27
Alignment explanation
Indices: 37533109--37533162 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
37533099 TCACACAAGT
*
37533109 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
37533135 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
37533162 T
1 T
37533163 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:37533332 original size:27 final size:27
Alignment explanation
Indices: 37533163--37533335 Score: 202
Period size: 27 Copynumber: 6.4 Consensus size: 27
37533153 GGGGCAAAAT
* ** * *
37533163 GGTAATTTTACCCCGCAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
37533190 GGTAATTGTACCCTGTAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
37533217 GGTATTTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
37533244 GGTAATTCTACCCAACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
37533271 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
37533298 GGTAATTCTACTTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
37533325 GGTAATTCTAC
1 GGTAATTCTAC
37533336 AACTTATCCA
Statistics
Matches: 124, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 124 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:37537477 original size:43 final size:43
Alignment explanation
Indices: 37537429--37537639 Score: 166
Period size: 43 Copynumber: 4.9 Consensus size: 43
37537419 CATCGAGACG
*
37537429 AGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTA
1 AGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
**
37537472 AGATTATGTGTAAGACCATGTCTGGGACATTGGCATCAT-TA-TA
1 AGATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTATTA
* * *** *
37537515 CGATTACGTGTAAGACCATGTCTAAAACATTGGCATCG--TTA
1 AGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
* * * * *
37537556 ATCGATTACATGTAAGACCCTTTCTAGGACAGTGGCATCGATATGT-
1 A--GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TAT-TA
* * *
37537602 -GATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 AGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
37537640 CGAGCTTATT
Statistics
Matches: 136, Mismatches: 22, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
41 4 0.03
42 7 0.05
43 120 0.88
44 2 0.01
45 1 0.01
46 1 0.01
47 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (43 bp):
AGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
Found at i:37544059 original size:25 final size:23
Alignment explanation
Indices: 37544014--37544071 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
37544004 ACTTCAACCA
* *
37544014 TTTTTATTTTTATTGCAATTTAATT
1 TTTTTATTTTAATTACAATTT--TT
*
37544039 TTTTTATTTTAATTACTATTTTT
1 TTTTTATTTTAATTACAATTTTT
37544062 TCTTTTATTT
1 T-TTTTATTT
37544072 GCTTTCGGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.10
24 8 0.28
25 18 0.62
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTTTATTTTAATTACAATTTTT
Found at i:37554354 original size:61 final size:61
Alignment explanation
Indices: 37554279--37554424 Score: 274
Period size: 61 Copynumber: 2.4 Consensus size: 61
37554269 CCTTGAAAAT
*
37554279 GTTTTTATCTCTAAATAGGAAATGGAGTGAAGAGAATTGGAAACAATAATTTATTTCAGAA
1 GTTTTTATCTCTAAATAGGAAATGGAGTGAAGAGAACTGGAAACAATAATTTATTTCAGAA
37554340 GTTTTTATCTCTAAATAGGAAATGGAGTGAAGAGAACTGGAAACAATAATTTATTTCAGAA
1 GTTTTTATCTCTAAATAGGAAATGGAGTGAAGAGAACTGGAAACAATAATTTATTTCAGAA
*
37554401 GTTTTTATCTCTAGATAGGAAATG
1 GTTTTTATCTCTAAATAGGAAATG
37554425 TTTTTAATCA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 83 1.00
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.34
Consensus pattern (61 bp):
GTTTTTATCTCTAAATAGGAAATGGAGTGAAGAGAACTGGAAACAATAATTTATTTCAGAA
Found at i:37556153 original size:2 final size:2
Alignment explanation
Indices: 37556146--37556172 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37556136 TCAAATATTC
37556146 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
37556173 CATGAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37556542 original size:42 final size:43
Alignment explanation
Indices: 37556483--37556591 Score: 148
Period size: 43 Copynumber: 2.6 Consensus size: 43
37556473 CATCCATTAT
*
37556483 GAACTCGGACCACTCAACGAGCTCGGATGC-CACATATATCAC
1 GAACTCGGACCACTCAACAAGCTCGGATGCTCACATATATCAC
* * * *
37556525 GAACTTGGACCACTCAACAAGTTCGTATTCTCACATATATCAC
1 GAACTCGGACCACTCAACAAGCTCGGATGCTCACATATATCAC
* *
37556568 GAACTCGAACCGCTCAACAAGCTC
1 GAACTCGGACCACTCAACAAGCTC
37556592 AGATTTCTTA
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
42 25 0.44
43 32 0.56
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (43 bp):
GAACTCGGACCACTCAACAAGCTCGGATGCTCACATATATCAC
Found at i:37560593 original size:57 final size:57
Alignment explanation
Indices: 37560525--37560633 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 57
37560515 CATTTTGACA
** *
37560525 AACATAAATATGTGCATTAAGAGACATTATGACAGCACCTATAAATTACATTTGGCC
1 AACATAAATATGCACATTAAGAGACATTATGACAGCAACTATAAATTACATTTGGCC
* *
37560582 AACATAAATATGCACATTAAGAGATATTTTGACAGCAACTATAAATTACATT
1 AACATAAATATGCACATTAAGAGACATTATGACAGCAACTATAAATTACATT
37560634 AAGACCGTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (57 bp):
AACATAAATATGCACATTAAGAGACATTATGACAGCAACTATAAATTACATTTGGCC
Found at i:37563949 original size:2 final size:2
Alignment explanation
Indices: 37563942--37563974 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
37563932 CTGCTGCTGC
37563942 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
37563975 CCTGCCTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:37567162 original size:11 final size:11
Alignment explanation
Indices: 37567146--37567170 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
37567136 TCAGTAGGCA
37567146 CATCACTAAAC
1 CATCACTAAAC
37567157 CATCACTAAAC
1 CATCACTAAAC
37567168 CAT
1 CAT
37567171 TATTTGGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.20
Consensus pattern (11 bp):
CATCACTAAAC
Found at i:37569831 original size:58 final size:59
Alignment explanation
Indices: 37569763--37569902 Score: 187
Period size: 59 Copynumber: 2.4 Consensus size: 59
37569753 TAGTTCATAT
* * *
37569763 TTTAAAAATAATTATATTAAGAATGTTATTAAATTATAT-ATTA-TTTTATTAAATTGTA
1 TTTAATAATAATTATATTAA-AATATTATTAAATTATATCATTATTTTTATTAAATTATA
* *
37569821 TTTAATAATAATTATGTTAAAATATTATTTAATTATATCATTATTTTTATTAAATTATA
1 TTTAATAATAATTATATTAAAATATTATTAAATTATATCATTATTTTTATTAAATTATA
*
37569880 TTTAGTAATAATCTA-ATTAAAAT
1 TTTAATAATAAT-TATATTAAAAT
37569903 TTAATAACAA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
57 16 0.22
58 22 0.31
59 32 0.44
60 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (59 bp):
TTTAATAATAATTATATTAAAATATTATTAAATTATATCATTATTTTTATTAAATTATA
Found at i:37569849 original size:27 final size:26
Alignment explanation
Indices: 37569763--37569905 Score: 81
Period size: 29 Copynumber: 5.0 Consensus size: 26
37569753 TAGTTCATAT
*
37569763 TTTAAAAATAATTATATTAAGAATGTTA
1 TTTAATAATAATTATATTAA-AAT-TTA
* * *
37569791 TTAAATTATATATTATTTTATTAAATTGTA
1 TTTAATAATA-ATTATATTA--AAATT-TA
*
37569821 TTTAATAATAATTATGTTAAAATATTA
1 TTTAATAATAATTATATTAAAAT-TTA
* *
37569848 TTTAATTATATCATTATTTTTATTAAATTATA
1 TTTAA-TA-ATAATTA-TATTA--AAATT-TA
*
37569880 TTTAGTAATAATCTA-ATTAAAATTTA
1 TTTAATAATAAT-TATATTAAAATTTA
37569906 ATAACAATAA
Statistics
Matches: 91, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
26 2 0.02
27 16 0.18
28 10 0.11
29 26 0.29
30 21 0.23
31 6 0.07
32 10 0.11
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (26 bp):
TTTAATAATAATTATATTAAAATTTA
Found at i:37570085 original size:16 final size:16
Alignment explanation
Indices: 37570064--37570117 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
37570054 TGAATTATTA
* *
37570064 ATTACAGCTTTATTCT
1 ATTACAGCTATATTCC
37570080 ATTACAG-TCATATTCC
1 ATTACAGCT-ATATTCC
* *
37570096 ATTACATCTCTATTCC
1 ATTACAGCTATATTCC
37570112 ATTACA
1 ATTACA
37570118 ATCCTATTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 1 0.03
16 30 0.94
17 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.04, T:0.43
Consensus pattern (16 bp):
ATTACAGCTATATTCC
Found at i:37570110 original size:32 final size:32
Alignment explanation
Indices: 37570064--37570126 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
37570054 TGAATTATTA
* * *
37570064 ATTACAGCTTTATTCTATTACAGTCATATTCC
1 ATTACAGCTCTATTCCATTACAATCATATTCC
* *
37570096 ATTACATCTCTATTCCATTACAATCCTATTC
1 ATTACAGCTCTATTCCATTACAATCATATTC
37570127 TATTCACCCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.29, C:0.25, G:0.03, T:0.43
Consensus pattern (32 bp):
ATTACAGCTCTATTCCATTACAATCATATTCC
Found at i:37570124 original size:16 final size:16
Alignment explanation
Indices: 37570074--37570126 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
37570064 ATTACAGCTT
* * *
37570074 TATTCTATTACAGTCA
1 TATTCCATTACAATCC
37570090 TATTCCATTAC-ATCTC
1 TATTCCATTACAATC-C
37570106 TATTCCATTACAATCC
1 TATTCCATTACAATCC
37570122 TATTC
1 TATTC
37570127 TATTCACCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 2 0.06
16 27 0.84
17 3 0.09
ACGTcount: A:0.28, C:0.26, G:0.02, T:0.43
Consensus pattern (16 bp):
TATTCCATTACAATCC
Found at i:37570522 original size:46 final size:44
Alignment explanation
Indices: 37570469--37570557 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
37570459 GAGTTGTAAA
37570469 GGAATAGAACTGTAATCAGTCATTCAAT-TGTTTGGTTCAATAGAAC
1 GGAATAGAACTGTAAT-AGT-ATTC-ATGTGTTTGGTTCAATAGAAC
** * *
37570515 GGAATAGAGTTGTAATAGTATTCTTGTGTTTGGTTGAATAGAA
1 GGAATAGAACTGTAATAGTATTCATGTGTTTGGTTCAATAGAA
37570558 TAGATTTTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 1 0.03
44 20 0.53
45 3 0.08
46 14 0.37
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (44 bp):
GGAATAGAACTGTAATAGTATTCATGTGTTTGGTTCAATAGAAC
Found at i:37570746 original size:57 final size:53
Alignment explanation
Indices: 37570651--37570757 Score: 135
Period size: 52 Copynumber: 1.9 Consensus size: 53
37570641 ATTGTTATTA
* *
37570651 AATTATTATTAAATATAATATAATAATAAATAATTTAATCATATT-TTAACAT
1 AATTATTATTAAATACAATATAATAATAAATAATTTAATAATATTATTAACAT
*
37570703 AATTATTATTAAATACAATTTAATAAAATAATTTATAATTTAATAATATTATTAA
1 AATTATTATTAAATACAATATAAT--AATAA---ATAATTTAATAATATTATTAA
37570758 TTCAATTGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
52 22 0.48
54 5 0.11
57 15 0.33
58 4 0.09
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (53 bp):
AATTATTATTAAATACAATATAATAATAAATAATTTAATAATATTATTAACAT
Found at i:37574151 original size:52 final size:53
Alignment explanation
Indices: 37574072--37574176 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 53
37574062 TATTCGAATT
*
37574072 TACTATTTTTTTTATTTTTTTATTAAAGCAAATTTTACATTGAAAGAAAATAG
1 TACTATTTTTTTTATTTTTTTATTAAAGAAAATTTTACATTGAAAGAAAATAG
37574125 TACTA-TTTTTTTATTTTTTTATTAAAGAAAATTTTACATTGAAAGAAAATAG
1 TACTATTTTTTTTATTTTTTTATTAAAGAAAATTTTACATTGAAAGAAAATAG
37574177 ATAATAATTT
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 46 0.90
53 5 0.10
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.49
Consensus pattern (53 bp):
TACTATTTTTTTTATTTTTTTATTAAAGAAAATTTTACATTGAAAGAAAATAG
Found at i:37575839 original size:22 final size:21
Alignment explanation
Indices: 37575811--37575887 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 21
37575801 TTTTAGTATC
*
37575811 ATTTTTATTTATTTTAATATTT
1 ATTTTTATTTATTTTAA-ATAT
*
37575833 ATTTTTATGT-TTTTAAATAT
1 ATTTTTATTTATTTTAAATAT
37575853 ATTTGATTTATTATATTTTTAAA-AT
1 A-TT--TTTATT-TA-TTTTAAATAT
37575878 -TTTTTATTTA
1 ATTTTTATTTA
37575888 ATGAAATAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
20 6 0.13
21 14 0.30
22 9 0.20
23 7 0.15
24 1 0.02
25 2 0.04
26 7 0.15
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (21 bp):
ATTTTTATTTATTTTAAATAT
Found at i:37575866 original size:26 final size:24
Alignment explanation
Indices: 37575827--37575875 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
37575817 ATTTATTTTA
*
37575827 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
37575851 ATATTTGATTTATTATATTTTTAAA
1 ATATTT-ATTT-TTATATTTTTAAA
37575876 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:37575886 original size:25 final size:26
Alignment explanation
Indices: 37575830--37575887 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
37575820 TATTTTAATA
*
37575830 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTTAAATATAT
* *
37575855 TTGATTTATTATATTTTTAAA-ATTT
1 TTTATTTATTATATTTTTAAATATAT
37575880 TTTATTTA
1 TTTATTTA
37575888 ATGAAATAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (26 bp):
TTTATTTATTATATTTTTAAATATAT
Found at i:37576418 original size:31 final size:33
Alignment explanation
Indices: 37576376--37576437 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 33
37576366 TTTATAATTA
*
37576376 TTTAATTAGATA-ATTATTA-TTTATTTAATAT
1 TTTAATAAGATATATTATTATTTTATTTAATAT
*
37576407 TTTAATAAGATATTTTATTATTTTATTTAAT
1 TTTAATAAGATATATTATTATTTTATTTAAT
37576438 CTATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 11 0.41
32 6 0.22
33 10 0.37
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (33 bp):
TTTAATAAGATATATTATTATTTTATTTAATAT
Found at i:37579036 original size:5 final size:5
Alignment explanation
Indices: 37579021--37579057 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
37579011 AGTGGAAAAG
*
37579021 TGAATT TGAAT TGAAT TGAAT TGAAT TGAAT GGAAT T
1 TGAA-T TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT T
37579058 ATGATTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.41
Consensus pattern (5 bp):
TGAAT
Found at i:37579537 original size:45 final size:45
Alignment explanation
Indices: 37579473--37579706 Score: 369
Period size: 45 Copynumber: 5.2 Consensus size: 45
37579463 TTGTTACCGC
* *
37579473 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
37579518 TACTGTTATCGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
37579563 TATTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
37579608 TATTGTTACCGTCACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * *
37579653 TACTATTACCGTTACCGATTCAGCACTTTGTGTGTTGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
37579698 TACCGTTAC
1 TACTGTTAC
37579707 TATTACTGTT
Statistics
Matches: 174, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 174 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:37579712 original size:6 final size:6
Alignment explanation
Indices: 37579695--37579759 Score: 60
Period size: 6 Copynumber: 10.7 Consensus size: 6
37579685 TGTTGAATAT
* * *
37579695 TGTTAC CGTTAC TATTAC TGTTAC TGCTAC TGTTAC TGATTAC TGTT-C
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TG-TTAC TGTTAC
* *
37579743 TGGTAC TATGTAC TGTT
1 TGTTAC TGT-TAC TGTT
37579760 TTAGGCACAA
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
5 4 0.09
6 31 0.67
7 11 0.24
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.46
Consensus pattern (6 bp):
TGTTAC
Found at i:37583667 original size:5 final size:5
Alignment explanation
Indices: 37583657--37583686 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
37583647 TCTAAAACTC
37583657 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
37583687 TTTAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:37584721 original size:14 final size:13
Alignment explanation
Indices: 37584702--37584739 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
37584692 TTTAAAGTTA
37584702 AAAACAAAAATAAT
1 AAAACAAAAA-AAT
*
37584716 AAAACAAAAAGAT
1 AAAACAAAAAAAT
37584729 AAAA-AAAAAAA
1 AAAACAAAAAAA
37584740 ACTATCATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 6 0.27
13 6 0.27
14 10 0.45
ACGTcount: A:0.84, C:0.05, G:0.03, T:0.08
Consensus pattern (13 bp):
AAAACAAAAAAAT
Found at i:37587562 original size:18 final size:18
Alignment explanation
Indices: 37587541--37587579 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
37587531 GTAAAATATT
37587541 AAATAATATTAAATAATA
1 AAATAATATTAAATAATA
* **
37587559 AAATATTATTATTTAATA
1 AAATAATATTAAATAATA
37587577 AAA
1 AAA
37587580 ATATTATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATAATATTAAATAATA
Found at i:37597048 original size:17 final size:17
Alignment explanation
Indices: 37597026--37597059 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
37597016 AGATTGTTTT
37597026 AAAGAACGTGCTTTATG
1 AAAGAACGTGCTTTATG
*
37597043 AAAGAACGTGTTTTATG
1 AAAGAACGTGCTTTATG
37597060 TACCTCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (17 bp):
AAAGAACGTGCTTTATG
Found at i:37598223 original size:30 final size:30
Alignment explanation
Indices: 37598187--37598246 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
37598177 ATAAATAACT
37598187 AAGGTTAATTTCATATTTCATTATTATGTC
1 AAGGTTAATTTCATATTTCATTATTATGTC
37598217 AAGGTTAATTTCATATTTCATTATTATGTC
1 AAGGTTAATTTCATATTTCATTATTATGTC
37598247 TTTTATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (30 bp):
AAGGTTAATTTCATATTTCATTATTATGTC
Found at i:37599964 original size:51 final size:48
Alignment explanation
Indices: 37599862--37599964 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 48
37599852 TCCCCAAAAA
* * * *
37599862 TAATATTATTTTAATAGTTTAATATTAAATTAAATTTAATATTTACCT
1 TAATATTATTTTAATAATTTAATATTAAATGAAATTTAATATTAAACT
* * *
37599910 TAATATTATTTTATTAATTTAATATTAAAGTGATTATCTTAATATTAAATT
1 TAATATTATTTTAATAATTTAATATTAAA-TGA-AAT-TTAATATTAAACT
37599961 TAAT
1 TAAT
37599965 TTAATGGTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
48 27 0.60
49 2 0.04
50 2 0.04
51 14 0.31
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (48 bp):
TAATATTATTTTAATAATTTAATATTAAATGAAATTTAATATTAAACT
Found at i:37600211 original size:25 final size:26
Alignment explanation
Indices: 37600169--37600219 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
37600159 AATTGTAAAG
*
37600169 AGAAAGTTCTCTAAAGATATTATTCT
1 AGAAAATTCTCTAAAGATATTATTCT
* *
37600195 AGAAAATT-TCTACAGATATTTTTCT
1 AGAAAATTCTCTAAAGATATTATTCT
37600220 GATTTACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (26 bp):
AGAAAATTCTCTAAAGATATTATTCT
Found at i:37605818 original size:29 final size:29
Alignment explanation
Indices: 37605754--37605821 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
37605744 TGTGAACAGG
* *
37605754 CCGTGTATCTCACATGGCCTTGGACACGC
1 CCGTGTGTCTCACACGGCCTTGGACACGC
37605783 CCGTGTGTCTCACACGGCCTTGGACACGC
1 CCGTGTGTCTCACACGGCCTTGGACACGC
*
37605812 TCGTGTGTCT
1 CCGTGTGTCT
37605822 AAGCCGTAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.13, C:0.34, G:0.26, T:0.26
Consensus pattern (29 bp):
CCGTGTGTCTCACACGGCCTTGGACACGC
Found at i:37606381 original size:58 final size:56
Alignment explanation
Indices: 37606309--37606482 Score: 140
Period size: 58 Copynumber: 3.0 Consensus size: 56
37606299 AATCATACCT
*
37606309 AAACATATGATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTC
1 AAACAAATGATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTC
* * * * * ** * * *
37606365 AAGTTTCAAAT-CTCAATTCATTAATCAAT-TTATAC-CAAAACTTCAACTAAAATCATAC-C
1 AA---ACAAATGATCAATACATCATTCAATCAAATGCTCAAAACTT--ACCAAAA-C-TTCTC
*
37606424 TAAACATATGATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTC
1 -AAACAAATGATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTC
37606481 AA
1 AA
37606483 CGTTGACCAT
Statistics
Matches: 84, Mismatches: 22, Indels: 24
0.65 0.17 0.18
Matches are distributed among these distances:
56 14 0.17
57 9 0.11
58 40 0.48
59 9 0.11
60 12 0.14
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.29
Consensus pattern (56 bp):
AAACAAATGATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTC
Found at i:37606456 original size:116 final size:116
Alignment explanation
Indices: 37606252--37606482 Score: 453
Period size: 116 Copynumber: 2.0 Consensus size: 116
37606242 TTACAAATCA
37606252 TTTCAAATCTCAATTCATCAATCAATTTATACCAAAACTTCAACTAAAATCATACCTAAACATAT
1 TTTCAAATCTCAATTCATCAATCAATTTATACCAAAACTTCAACTAAAATCATACCTAAACATAT
37606317 GATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTCAAG
66 GATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTCAAG
*
37606368 TTTCAAATCTCAATTCATTAATCAATTTATACCAAAACTTCAACTAAAATCATACCTAAACATAT
1 TTTCAAATCTCAATTCATCAATCAATTTATACCAAAACTTCAACTAAAATCATACCTAAACATAT
37606433 GATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTCAA
66 GATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTCAA
37606483 CGTTGACCAT
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 114 1.00
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.30
Consensus pattern (116 bp):
TTTCAAATCTCAATTCATCAATCAATTTATACCAAAACTTCAACTAAAATCATACCTAAACATAT
GATCAATACATCATTCAATCAAATGCTCAAAACTTACCAAAACTTCTCAAG
Found at i:37607138 original size:42 final size:43
Alignment explanation
Indices: 37607044--37607200 Score: 146
Period size: 42 Copynumber: 3.7 Consensus size: 43
37607034 CAGTGCCAAC
* *
37607044 GTCCCAGACATGGTCTTACATGTAATCAAACATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATCAAACATCGATGCCACT
* * *
37607087 GTCCTAGACAGGGTCTTACACGAAATC-AAC-TACGATGCTGA-T
1 GTCCCAGACATGGTCTTACACGAAATCAAACAT-CGATGC-CACT
*
37607129 GTCCCAGACATGGTCTTACACGTGAAAT-AGAA-GTCGATGCCAAC-
1 GTCCCAGACATGGTCTTACAC--GAAATCA-AACATCGATGCC-ACT
**
37607173 GTCCCAGATGTGGTCTTACACGAAATCA
1 GTCCCAGACATGGTCTTACACGAAATCA
37607201 CATAACGGAA
Statistics
Matches: 94, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
41 1 0.01
42 34 0.36
43 25 0.27
44 31 0.33
45 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCAAACATCGATGCCACT
Found at i:37607194 original size:86 final size:85
Alignment explanation
Indices: 37607044--37607200 Score: 205
Period size: 86 Copynumber: 1.8 Consensus size: 85
37607034 CAGTGCCAAC
* *
37607044 GTCCCAGACATGGTCTTACATGTAATCAAACATCGATGCCACTGTCCTAGACAGGGTCTTACACG
1 GTCCCAGACATGGTCTTACATGAAATCAAACATCGATGCCACTGTCCCAGACAGGGTCTTACACG
37607109 AAATCAACTACGATGCTGAT
66 AAATCAACTACGATGCTGAT
* *
37607129 GTCCCAGACATGGTCTTACACGTGAAAT-AGAA-GTCGATGCCAAC-GTCCCAGA-TGTGGTCTT
1 GTCCCAGACATGGTCTTACA--TGAAATCA-AACATCGATGCC-ACTGTCCCAGACAG-GGTCTT
37607190 ACACGAAATCA
61 ACACGAAATCA
37607201 CATAACGGAA
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
85 21 0.33
86 33 0.52
87 9 0.14
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (85 bp):
GTCCCAGACATGGTCTTACATGAAATCAAACATCGATGCCACTGTCCCAGACAGGGTCTTACACG
AAATCAACTACGATGCTGAT
Found at i:37615199 original size:43 final size:42
Alignment explanation
Indices: 37615140--37615249 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
37615130 CAGTGCCAAG
37615140 GTCCCAGAC-GTGGTCTTACATGTAATCAAACATCGATGC-CACT
1 GTCCCAGACAG-GGTCTTACATGTAATCAAACA-CGATGCTCA-T
** * * * *
37615183 GTCGTAGACAGGGTCTTACATGAAATCAGATACGATGCTGAT
1 GTCCCAGACAGGGTCTTACATGTAATCAAACACGATGCTCAT
*
37615225 GTCCCAGACATGGTCTTACATGTAA
1 GTCCCAGACAGGGTCTTACATGTAA
37615250 AATAGAAGCC
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
42 28 0.51
43 26 0.47
44 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACATGTAATCAAACACGATGCTCAT
Found at i:37620392 original size:29 final size:29
Alignment explanation
Indices: 37620359--37620489 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
37620349 GTGACGAGAT
37620359 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
37620388 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
37620417 CGGCACTGGGTGTGCGA-GCTCGAAGCGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
37620446 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
37620475 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
37620490 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:37622922 original size:40 final size:40
Alignment explanation
Indices: 37622825--37623004 Score: 175
Period size: 40 Copynumber: 4.5 Consensus size: 40
37622815 TCGAATGGTG
* * *
37622825 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
37622866 TCCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
37622906 ACCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * * *
37622946 TCCGGGCTAATTCCCGAAGTCAATTGTGTGAATCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
37622987 -CCGGGCTATGTCCCGAAG
1 TCCGGGCTAAGTCCCGAAG
37623005 ACAATCGAGC
Statistics
Matches: 114, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
40 86 0.75
41 28 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:37622973 original size:80 final size:80
Alignment explanation
Indices: 37622826--37623018 Score: 199
Period size: 80 Copynumber: 2.4 Consensus size: 80
37622816 CGAATGGTGT
* * * *
37622826 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
* *
37622891 GTGCGAGTTACCAAAA
65 GTGCGAATCACCAAAA
* * * * *
37622907 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGG-CTAATTCCCGAAGTCAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTC-AACTCCCGAAGGCAATT
* * *
37622971 GTGTGAATCACTATAA
65 GTGCGAATCACCAAAA
* * * *
37622987 CCGGGCTATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
37623019 CGCTATATCC
Statistics
Matches: 92, Mismatches: 19, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
79 1 0.01
80 66 0.72
81 25 0.27
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATTG
TGCGAATCACCAAAA
Done.